BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 016739
(383 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 87.8 bits (216), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 60/237 (25%), Positives = 108/237 (45%), Gaps = 35/237 (14%)
Query: 62 LRRIQRGGIHPSIKGLVWEFLLGCYDPNSTFEERNQIRQQRRDSLDQGWHVDGAISDKKV 121
LR+I GI + +VW+ L+G Y P +T + ++++R++ D H + +
Sbjct: 46 LRQISWNGIPKIHRPVVWKLLIG-YLPVNTKRQEGFLQRKRKEYRDSLKHTFSDQHSRDI 104
Query: 122 LQWMLGLHQIGLDVVRTDRSLVFYESETNQAKLWDVLAIYSWVDNDIGYVQGMNDICSPM 181
W HQI +D+ RT+ + Y+ ++ Q L +L +++ GYVQG+ND+ +P
Sbjct: 105 PTW----HQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPF 160
Query: 182 I----------------------------VLLENEADAFWCFEHTMRRLRENFRTNTGMI 213
+ + EAD FWC + ++ +N+ G
Sbjct: 161 FETFLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQITDNYIH--GQP 218
Query: 214 GVQSQLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSFVDALYLWE 270
G+ Q+ LSQ+++ ID L+ H ++ FAFR + L REF + +W+
Sbjct: 219 GILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREFQMGTVIRMWD 275
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 84.7 bits (208), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 64/257 (24%), Positives = 115/257 (44%), Gaps = 36/257 (14%)
Query: 62 LRRIQRGGIHPSIKGLVWEFLLGCYDPNSTFEERNQIRQQRRDSLDQGWHVDGAISDKKV 121
LR+I GI + +VW+ L+G Y P +T + ++++R++ D H + +
Sbjct: 26 LRQISWNGIPKIHRPVVWKLLIG-YLPVNTKRQEGFLQRKRKEYRDSLKHTFSDQHSRDI 84
Query: 122 LQWMLGLHQIGLDVVRTDRSLVFYESETNQAKLWDVLAIYSWVDNDIGYVQGMNDICSPM 181
W HQI +D+ RT+ + Y+ ++ Q L +L +++ GYVQG+ND+ +P
Sbjct: 85 PTW----HQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPF 140
Query: 182 I----------------------------VLLENEADAFWCFEHTMRRLRENFRTNTGMI 213
+ + EAD FWC + ++ +N+ G
Sbjct: 141 FETFLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQITDNYI--HGQP 198
Query: 214 GVQSQLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSFVDALYLWELMW 273
G+ Q+ LSQ+++ ID L+ H ++ FAFR L REF + W+ +
Sbjct: 199 GILRQVKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREFQXGTVIRXWD-TY 257
Query: 274 AMEYNPNIFSLYESNSS 290
E + + S Y +S+
Sbjct: 258 LSETSQEVTSSYSXSSN 274
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 71.2 bits (173), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 56/232 (24%), Positives = 101/232 (43%), Gaps = 29/232 (12%)
Query: 62 LRRIQRGGIHPSIKGLVWEFLLGCYDPNSTFEERNQIRQQRRDSLDQGWHVDGAISDKKV 121
LR+ G+ ++ + W L G Y P +T ER ++ QR+ G+ ++ +
Sbjct: 44 LRKCSWPGVPREVRPITWRLLSG-YLPANT--ERRKLTLQRKREEYFGF-IEQYYDSRNE 99
Query: 122 LQWMLGLHQIGLDVVRTDRSLVFYESETNQAKLWDVLAIYSWVDNDIGYVQGMNDICSPM 181
QI +D+ RT+ + ++ Q +L I++ GYVQG+ND+ +P
Sbjct: 100 EHHQDTYRQIHIDIPRTNPLIPLFQQPLVQEIFERILFIWAIRHPASGYVQGINDLVTPF 159
Query: 182 IVL---------LEN--------------EADAFWCFEHTMRRLRENFRTNTGMIGVQSQ 218
V+ +EN EAD+FWC + +++N+ G+Q +
Sbjct: 160 FVVFLSEYVEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNY--TFAQPGIQKK 217
Query: 219 LSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSFVDALYLWE 270
+ L +++ ID ++H H + FAFR + L RE + LW+
Sbjct: 218 VKALEELVSRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLWD 269
>pdb|2QFZ|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 22a
pdb|2QFZ|B Chain B, Crystal Structure Of Human Tbc1 Domain Family Member 22a
Length = 345
Score = 62.4 bits (150), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 51/233 (21%), Positives = 99/233 (42%), Gaps = 31/233 (13%)
Query: 62 LRRIQRGGIHPSIKGLVWEFLLGCYDPNSTFEERNQIRQQRRDSLDQGWHVDGAISDKKV 121
LRR+ GI ++ + W+ L G Y P + +++++++ H + +D+
Sbjct: 43 LRRLSWSGIPKPVRPMTWKLLSG-YLPANVDRRPATLQRKQKEYFAFIEHYYDSRNDEVH 101
Query: 122 LQWMLGLHQIGLDVVRTDRSLVFYESETNQAKLWDVLAIYSWVDNDIGYVQGMNDICSPM 181
QI +D+ R + + + + +L I++ GYVQG+ND+ +P
Sbjct: 102 QD---TYRQIHIDIPRMSPEALILQPKVTEI-FERILFIWAIRHPASGYVQGINDLVTPF 157
Query: 182 IV------------------------LLENEADAFWCFEHTMRRLRENFRTNTGMIGVQS 217
V L EAD +WC + +++N+ G+Q
Sbjct: 158 FVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYWCMSKLLDGIQDNY--TFAQPGIQM 215
Query: 218 QLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSFVDALYLWE 270
++ L +++ ID ++H+HL+ + FAFR + L RE + LW+
Sbjct: 216 KVKMLEELVSRIDEQVHRHLDQHEVRYLQFAFRWMNNLLMREVPLRCTIRLWD 268
>pdb|3QYE|A Chain A, Crystal Structure Of Human Tbc1d1 Rabgap Domain
pdb|3QYE|B Chain B, Crystal Structure Of Human Tbc1d1 Rabgap Domain
Length = 331
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 53/225 (23%), Positives = 105/225 (46%), Gaps = 26/225 (11%)
Query: 46 WHAAFSEDGHLDIAKVLRRIQRG---GIHPSIKGLVWEFLLGCYDPNSTFEERNQIRQQR 102
W S G I + ++ G+ +G +W+FL + F + QQ
Sbjct: 33 WEKMLSTPGRSKIKFDMEKMHSAVGQGVPRHHRGEIWKFLAEQFHLKHQFPSK----QQP 88
Query: 103 RDSLDQGWHVDGAISDKKVLQWMLGL-HQIGLDVVRTDRSLVFYESE--TNQAKLWDVLA 159
+D + K++L+ + H I +D+ RT + ++ ++ Q L+++L
Sbjct: 89 KD-----------VPYKELLKQLTSQQHAILIDLGRTFPTHPYFSAQLGAGQLSLYNILK 137
Query: 160 IYSWVDNDIGYVQGMNDICSPMIVLLENEADAFWCFEHTM--RRLRENFRTNTGMIGVQS 217
YS +D ++GY QG++ + +++L +E +AF + M LR+ +R + MI +Q
Sbjct: 138 AYSLLDQEVGYCQGLSFVAG-ILLLHMSEEEAFKMLKFLMFDMGLRKQYRPD--MIILQI 194
Query: 218 QLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSF 262
Q+ LS+++ L+ HLE+ + G L+A + +F +F
Sbjct: 195 QMYQLSRLLHDYHRDLYNHLEEHEIGPSLYAAPWFLTMFASQFPL 239
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 66/275 (24%), Positives = 130/275 (47%), Gaps = 32/275 (11%)
Query: 67 RGGIHPSIKGLVWEFLLGCYDPNSTFEERNQIRQQRRDSLDQGWHVDGAISDKKVLQWML 126
+ G+ S +G +W+FL Y R +QQ D IS K++L+ +
Sbjct: 47 KEGVPKSRRGEIWQFLALQY----RLRHRLPNKQQPPD-----------ISYKELLKQLT 91
Query: 127 GL-HQIGLDVVRTDRSLVFYESE--TNQAKLWDVLAIYSWVDNDIGYVQGMNDICSPMIV 183
H I +D+ RT + ++ + Q L+++L YS +D ++GY QG++ + +++
Sbjct: 92 AQQHAILVDLGRTFPTHPYFSVQLGPGQLSLFNLLKAYSLLDKEVGYCQGISFVAG-VLL 150
Query: 184 LLENEADAFWCFEHTMRRL--RENFRTNTGMIGVQSQLSTLSQIIRTIDPKLHQHLEDLD 241
L +E AF + M L R+ +R + M+ +Q Q+ LS+++ L+ HLE+ +
Sbjct: 151 LHMSEEQAFEMLKFLMYDLGFRKQYRPD--MMSLQIQMYQLSRLLHDYHRDLYNHLEENE 208
Query: 242 GGEYLFAFRMLMVLFRREFSFVDALYLWELMWAMEYNPNIFSLYESNSSTSDGRQVNDKQ 301
L+A + LF +FS ++++++ ++ IF + S S+ +
Sbjct: 209 ISPSLYAAPWFLTLFASQFSLGFVARVFDIIF-LQGTEVIFKVALSLLSS------QETL 261
Query: 302 LKQCGKFER--KNVKTGLPDKTSALSVFLVASVLE 334
+ +C FE + +K LPD ++ ++ V E
Sbjct: 262 IMECESFENIVEFLKNTLPDMNTSEMEKIITQVFE 296
>pdb|3HZJ|A Chain A, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
pdb|3HZJ|B Chain B, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
pdb|3HZJ|C Chain C, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
Length = 310
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 51/237 (21%), Positives = 98/237 (41%), Gaps = 44/237 (18%)
Query: 45 RWHAAFSEDGHLDIAKVLRRIQRGGIHPSIKGLVWEFLLGCYDPNSTFEERNQIRQQRRD 104
+WH+ K L + + G+ +++ VW+ L GC+D N +R +I + D
Sbjct: 14 KWHSNLGAR-----PKGLSTLVKSGVPEALRAEVWQLLAGCHD-NQAXLDRYRILITK-D 66
Query: 105 SLDQGWHVDGAISDKKVLQWMLGLHQIGLDVVRTDRSLVFYESE--TNQAKLWDVLAIYS 162
S + I D+ RT + +++ Q L+ + YS
Sbjct: 67 SAQES--------------------VITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYS 106
Query: 163 WVDNDIGYVQGMNDICSPMIVLLENEADAFWC------FEHTMRRL-RENFRTNTGMIGV 215
D DIGY QG + + + ++LL + +C +++ +R L R NF +
Sbjct: 107 VYDEDIGYCQGQSFLAA--VLLLHXPEEQAFCVLVKIXYDYGLRDLYRNNFE------DL 158
Query: 216 QSQLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSFVDALYLWELM 272
+ L ++ + P LH H DL+ + +A + + LF +F ++ +L+
Sbjct: 159 HCKFYQLERLXQEQLPDLHSHFSDLNLEAHXYASQWFLTLFTAKFPLCXVFHIIDLL 215
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 51/221 (23%), Positives = 97/221 (43%), Gaps = 11/221 (4%)
Query: 59 AKVLRRIQRGGIHPSIKGLVWEFLLGCYDPNSTFEERN----QIRQQRRDSLDQGWHVDG 114
++ +R + GI PS++G VW +G + N T E + + +++ R G V+
Sbjct: 38 SRKVRDLWWQGIPPSVRGKVWSLAIG-NELNITHELFDICLARAKERWRSLSTGGSEVEN 96
Query: 115 AISDKKVLQWMLGLHQIGLDVVRTDRSL-VFYESETNQAKLWDVLAIYSWVDNDIGYVQG 173
+ L I LD+ RT +L +F + L +L Y+ D+GYVQG
Sbjct: 97 EDAGFSAADREASLELIKLDISRTFPNLCIFQQGGPYHDMLHSILGAYTCYRPDVGYVQG 156
Query: 174 MNDICSPMIVLLENEADAFWCFEHTMRRLREN--FRTNTGMIGVQSQLSTLSQIIRTIDP 231
M+ I + +I+ L+ ADAF F + + + + FR + G++ + + P
Sbjct: 157 MSFIAAVLILNLDT-ADAFIAFSNLLNKPCQMAFFRVDHGLM--LTYFAAFEVFFEENLP 213
Query: 232 KLHQHLEDLDGGEYLFAFRMLMVLFRREFSFVDALYLWELM 272
KL H + + ++ + L+ + A +W++
Sbjct: 214 KLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVF 254
>pdb|2IS9|A Chain A, Structure Of Yeast Dcn-1
Length = 204
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 203 RENFRTNTGMIGVQSQLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSF 262
RE+F + M G S +S + + I+T+D KLH+ L+ Y +AF +++ R++
Sbjct: 62 REDFLSTWFMQGC-STISDMQECIKTLDVKLHEDLQYF-TQIYNYAFNLILDPNRKDIDT 119
Query: 263 VDALYLWELMWAMEY 277
+ + W+L + EY
Sbjct: 120 DEGIQYWKLFFQPEY 134
>pdb|3O2P|A Chain A, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
pdb|3O6B|A Chain A, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|C Chain C, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|G Chain G, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|I Chain I, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3TDI|B Chain B, Yeast Cul1whb-Dcn1p Acetylated Ubc12n Complex
pdb|3TDI|A Chain A, Yeast Cul1whb-Dcn1p Acetylated Ubc12n Complex
Length = 202
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 203 RENFRTNTGMIGVQSQLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSF 262
RE+F + M G S +S + + I+T+D KLH+ L+ Y +AF +++ R++
Sbjct: 60 REDFLSTWFMQGC-STISDMQECIKTLDVKLHEDLQYF-TQIYNYAFNLILDPNRKDIDT 117
Query: 263 VDALYLWELMWAMEY 277
+ + W+L + EY
Sbjct: 118 DEGIQYWKLFFQPEY 132
>pdb|3BQ3|A Chain A, Crystal Structure Of S. Cerevisiae Dcn1
Length = 270
Score = 31.6 bits (70), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 203 RENFRTNTGMIGVQSQLSTLSQIIRTIDPKLHQHLEDLDGGEYLFAFRMLMVLFRREFSF 262
RE+F + G S +S + I+T+D KLH+ L+ Y +AF +++ R++
Sbjct: 128 REDFLSTWFXQGC-STISDXQECIKTLDVKLHEDLQYF-TQIYNYAFNLILDPNRKDIDT 185
Query: 263 VDALYLWELMWAMEY 277
+ + W+L + EY
Sbjct: 186 DEGIQYWKLFFQPEY 200
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.137 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,057,567
Number of Sequences: 62578
Number of extensions: 451754
Number of successful extensions: 1031
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1004
Number of HSP's gapped (non-prelim): 21
length of query: 383
length of database: 14,973,337
effective HSP length: 101
effective length of query: 282
effective length of database: 8,652,959
effective search space: 2440134438
effective search space used: 2440134438
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)